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Update deepsea.rst
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aaronkw committed Nov 22, 2019
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Expand Up @@ -53,7 +53,7 @@ In-silico mutagenesis
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Perform "In silico saturated mutagenesis" (ISM) analysis to discover informative sequence features within any sequence. Specifically, it performs computational mutation scanning to assess the effect of mutating every base of the input sequence on chromatin feature predictions. This method for context-specific sequence feature extraction takes advantage of DeepSEA’s ability to utilize flanking context sequences information.

We support three types of input for specifying a sequence to analyze: vcf, fasta, bed. See the Input section for a brief introduction to the formats. Note that ISM only accepts a sequence (FASTA file) as input.
Note that ISM only accepts a sequence (FASTA file) as input.

ISM outputs effects for each of three possible substitutions of all 1000 bases, across all chromatin features.

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